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Clinical microbiology and vaccines

This section aims to publish studies looking at all aspects of clinical microbiology, including virology, epidemiology, antimicrobial resistance, vaccines and immune responses.

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  1. Serotyping of Streptococcus pneumoniae is important for monitoring of vaccine impact. Unfortunately, conventional and molecular serotyping is expensive and technically demanding. This study aimed to determine the...

    Authors: Sivkheng Kann, Sena Sao, Chanleakhena Phoeung, Youlet By, Juliet Bryant, Florence Komurian-Pradel, Vonthanak Saphonn, Monidarin Chou and Paul Turner

    Citation: BMC Microbiology 2020 20:367

    Content type: Research article

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  2. The emergence of metallo-β-lactamase (MBL)-producing isolates is alarming since they carry mobile genetic elements with great ability to spread; therefore, early detection of these isolates, particularly their...

    Authors: Fahimeh Mahmoodi, Seyedeh Elham Rezatofighi and Mohammad Reza Akhoond

    Citation: BMC Microbiology 2020 20:366

    Content type: Research article

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  3. Omadacycline (ZL-2401) is a semi-synthetic derivative of minocycline. It has a broadspectrum activity against Gram-positive and Gram-negative bacteria, and atypical pathogens. The objective of this study was t...

    Authors: Meng Xiao, Jing-jing Huang, Ge Zhang, Wen-hang Yang, Fanrong Kong, Timothy Kudinha and Ying-chun Xu

    Citation: BMC Microbiology 2020 20:350

    Content type: Research article

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  4. Whole genome sequencing has emerged as a useful tool for identification and molecular characterization of pathogens. MinION (Oxford Nanopore) is a real-time third generation sequencer whose portability, afford...

    Authors: S. Garcia-Garcia, A. Perez-Arguello, D. Henares, N. Timoneda and C. Muñoz-Almagro

    Citation: BMC Microbiology 2020 20:347

    Content type: Research article

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  5. Klebsiella pneumoniae is a leading cause of intractable hospital-acquired multidrug-resistant infections and carbapenemase-producing K. pneumoniae (CPKp) are particularly feared. Most of the clinical isolates pro...

    Authors: Adriana Chiarelli, Nicolas Cabanel, Isabelle Rosinski-Chupin, Pengdbamba Dieudonné Zongo, Thierry Naas, Rémy A. Bonnin and Philippe Glaser

    Citation: BMC Microbiology 2020 20:325

    Content type: Research article

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  6. To evaluate the accuracy and performance of the Autof MS1000 mass spectrometer in bacteria and yeast identification, 2342 isolates were obtained from microbial cultures of clinical specimens (e.g. blood, cereb...

    Authors: Qiong Ma, Qi Zhang, Youhua Yuan, Wenjuan Yan, Shanmei Wang, Junhong Xu, Jiangfeng Zhang, Yuming Wang and Yi Li

    Citation: BMC Microbiology 2020 20:318

    Content type: Research article

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  7. Nontuberculous mycobacteria (NTM) are ubiquitous organisms and the incidence of NTM infections has been increasing in recent years. Mycobacteroides abscessus (M. abscessus) is one of the most antimicrobial-resist...

    Authors: Satomi Takei, Hiroaki Ihara, Shinsaku Togo, Ayako Nakamura, Yuichi Fujimoto, Junko Watanabe, Kana Kurokawa, Kohei Shibayama, Issei Sumiyoshi, Yusuke Ochi, Moe Iwai, Takahiro Okabe, Masayoshi Chonan, Shigeki Misawa, Akimichi Ohsaka and Kazuhisa Takahashi

    Citation: BMC Microbiology 2020 20:316

    Content type: Research article

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  8. Carbapenemase-resistant Enterobacteriaceae (CRE) cause many serious infections resulting in increasing treatment cost, prolonged hospitalization, and mortality rate. Reduced expression and/or mutations of porins ...

    Authors: Ya-Min Tsai, Shining Wang, Hui-Chuan Chiu, Cheng-Yen Kao and Li-Li Wen

    Citation: BMC Microbiology 2020 20:315

    Content type: Research article

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  9. Multidrug resistant (MDR) Gram-negative bacterial infections are a serious threat to human health due to the lack of effective treatments. In this study, we selected 50 Gram-negative bacterial strains, includi...

    Authors: Li Liu, Jingyi Yu, Xiaofei Shen, Xingwei Cao, Qing Zhan, Yinjuan Guo and Fangyou Yu

    Citation: BMC Microbiology 2020 20:306

    Content type: Research article

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  10. Porcine circovirus type 2 (PCV2) is an important and common DNA virus that infect pig and can cause immunosuppression and induce apoptosis in the infected cells. To escape the host immune system, PCV2 constant...

    Authors: Yinlan Xu, Panpan Sun, Shuangxiu Wan, Jianhua Guo, Xiaozhong Zheng, Yaogui Sun, Kuohai Fan, Wei Yin, Na Sun and Hongquan Li

    Citation: BMC Microbiology 2020 20:303

    Content type: Research article

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  11. Diagnosis of soil-transmitted helminths (STHs) in developing countries is commonly based on microscopic detection of eggs in stool samples, using the Kato-Katz (KK) method, which has a poor sensitivity for det...

    Authors: Beatrice Barda, Christian Schindler, Rahel Wampfler, Shaali Ame, Said M. Ali and Jennifer Keiser

    Citation: BMC Microbiology 2020 20:298

    Content type: Research article

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  12. Stenotrophomonas maltophilia (S. maltophilia) is an important opportunistic pathogen that can be isolated in hospitals. With the abuse of broad spectrum antibiotics and invasive surgical devices, the rate of S. m...

    Authors: Zhongliang Duan, Juanxiu Qin, Yao Liu, Cui Li and Chunmei Ying

    Citation: BMC Microbiology 2020 20:294

    Content type: Research article

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  13. Divalent cations are able to interact with exopolysaccharides (EPS) and thus are capable to modify the structure and composition of dental biofilm. At the moment, little is known about the adsorption of metals...

    Authors: Elena Laura Steiger, Julia Rahel Muelli, Olivier Braissant, Tuomas Waltimo and Monika Astasov-Frauenhoffer

    Citation: BMC Microbiology 2020 20:287

    Content type: Research article

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  14. Streptococcus mutans (S. mutans) is one of the main cariogenic bacteria for caries. It was found that the clinical strains of S. mutans isolated from caries active population have stronger cariogenic ability than...

    Authors: Bingchun Li, Ting Pan, Huancai Lin and Yan Zhou

    Citation: BMC Microbiology 2020 20:286

    Content type: Research article

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  15. Gram-negative bacterial capsules are associated with production of carbohydrates, frequently resulting in a mucoid phenotype. Infections caused by capsulated or mucoid A. baumannii are associated with increased c...

    Authors: Hadas Kon, David Schwartz, Elizabeth Temkin, Yehuda Carmeli and Jonathan Lellouche

    Citation: BMC Microbiology 2020 20:285

    Content type: Methodology article

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  16. The potential of genetic testing for rapid and accurate diagnosis of drug-resistant Mycobacterium tuberculosis strains is vital for efficient treatment and reduction in dissemination. MTBDR plus assays rapidly de...

    Authors: Pallavi Sinha, G. N. Srivastava, Rajneesh Tripathi, Mukti Nath Mishra and Shampa Anupurba

    Citation: BMC Microbiology 2020 20:284

    Content type: Research article

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  17. As no treatment or effective vaccine for African swine fever virus (ASFV) is currently available, a rapid, highly sensitive diagnostic is urgently needed to curb the spread of ASFV.

    Authors: Xiaoying Wang, Sheng He, Na Zhao, Xiaohong Liu, Yongchang Cao, Guihong Zhang, Gang Wang and Chunhe Guo

    Citation: BMC Microbiology 2020 20:282

    Content type: Methodology article

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  18. Fusarium species are the fungal pathogens most commonly responsible for the mycotic keratitis, which are resistant to the majority of currently available antifungal agents. The present study was designed to asses...

    Authors: Tao Jiang, Jing Tang, Zhiqin Wu, Yi Sun, Jingwen Tan and Lianjuan Yang

    Citation: BMC Microbiology 2020 20:275

    Content type: Research article

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  19. Interest in carbapenems has been rising in the last few years due to the emergence of drug resistant tuberculosis. Ertapenem (ETP), given once a day parenteral, and faropenem (FAR), oral, have a better adminis...

    Authors: Ximena Gonzalo, Giovanni Satta, Julio Ortiz Canseco, Timothy D. McHugh and Francis Drobniewski

    Citation: BMC Microbiology 2020 20:271

    Content type: Research article

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  20. The burden of non-tuberculous mycobacterial (NTM) disease is increasing worldwide but still its diagnosis is delayed and it is mistaken as multidrug-resistant tuberculosis (MDR-TB).The present study was perfor...

    Authors: Kamal Singh, Richa Kumari, Rajneesh Tripathi, Smita Gupta and Shampa Anupurba

    Citation: BMC Microbiology 2020 20:267

    Content type: Research article

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  21. Typically, raw meat can be contaminated with antibiotic resistant pathogens at unhygienic slaughter and sale points. Consumption of meat contaminated with antibiotic resistant E. coli is associated with grave hea...

    Authors: Esther Dsani, Edwin Andrews Afari, Anthony Danso-Appiah, Ernest Kenu, Basil Benduri Kaburi and Beverly Egyir

    Citation: BMC Microbiology 2020 20:253

    Content type: Research article

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  22. Coxiella burnetii is an obligate intracellular Gram-negative bacterium that causes a zoonotic disease commonly called Q fever globally. In this study, an up-converting phosphor technology-based lateral flow (UPT-...

    Authors: Pingping Zhang, Jun Jiao, Yong Zhao, Mengjiao Fu, Jin Wang, Yajun Song, Dongsheng Zhou, Yongqiang Wang, Bohai Wen, Ruifu Yang and Xiaolu Xiong

    Citation: BMC Microbiology 2020 20:251

    Content type: Research article

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  23. Aleutian mink disease parvovirus (AMDV) causes Aleutian mink disease (AMD), which is a serious infectious disease of mink. The aim of this study was to get a better understanding of the molecular epidemiology ...

    Authors: Mingwei Tong, Na Sun, Zhigang Cao, Yuening Cheng, Miao Zhang, Shipeng Cheng and Li Yi

    Citation: BMC Microbiology 2020 20:234

    Content type: Research article

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  24. Prompt identification of carbapenemase-harboring organisms is valuable in informing therapeutic and infection-control measures. The modified carbapenem inactivation method (mCIM) and EDTA-modified carbapenem i...

    Authors: Maxwell J. Lasko, Christian M. Gill, Tomefa E. Asempa and David P. Nicolau

    Citation: BMC Microbiology 2020 20:220

    Content type: Research article

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  25. Staphylococcus aureus is a leading cause of broad-spectrum infections both in the community and within healthcare settings. Methicillin-resistant Staphylococcus aureus (MRSA) has become a global public health iss...

    Authors: C. Negrete-González, E. Turrubiartes-Martínez, O. G. Galicia-Cruz, D. E. Noyola, G. Martínez-Aguilar, L. F. Pérez-González, R. González-Amaro and P. Niño-Moreno

    Citation: BMC Microbiology 2020 20:213

    Content type: Research article

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  26. In Gram-negative species, β-lactam antibiotics target penicillin binding proteins (PBPs) resulting in morphological alterations of bacterial cells. Observations of antibiotic-induced cell morphology changes ca...

    Authors: Heather P. McLaughlin, Julia Bugrysheva and David Sue

    Citation: BMC Microbiology 2020 20:209

    Content type: Research article

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  27. Pseudomonas aeruginosa is the most common Gram-negative pathogen responsible for chronic wound infections, such as diabetic foot infections, and further exacerbates the treatment options and cost of such conditio...

    Authors: Tao Chen, Ye Xu, Wenya Xu, Wenli Liao, Chunquan Xu, Xiucai Zhang, Jianming Cao and Tieli Zhou

    Citation: BMC Microbiology 2020 20:203

    Content type: Research article

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  28. Salmonella is one of the main causative agents of diarrhea which results in substantial disease burden. To determine the prevalence, serotype distribution, and antimicrobial resistance profiles of clinical Salmon...

    Authors: Hongwei Shen, Haochuan Chen, Yongxuan Ou, Tingting Huang, Siping Chen, Lintao Zhou, Jinjin Zhang, Qinghua Hu, Yiwen Zhou and Wen Ma

    Citation: BMC Microbiology 2020 20:197

    Content type: Research article

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  29. Diarrhoeagenic Escherichia coli (DEC) infections are common in children in low-middle income countries (LMICs). However, detecting the various DEC pathotypes is complex as they cannot be differentiated by classic...

    Authors: Vu Thuy Duong, Le Thi Phuong Tu, Ha Thanh Tuyen, Le Thi Quynh Nhi, James I. Campbell, Pham Van Minh, Hoang Le Phuc, Tran Thi Hong Chau, Nguyen Minh Ngoc, Lu Lan Vi, Claire Jenkins, Iruka Okeke, Ellen Higginson and Stephen Baker

    Citation: BMC Microbiology 2020 20:192

    Content type: Research article

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  30. Our previous research indicated the excellent in vitro antibacterial activity of Eravacycline (Erava) and its heteroresistance frequency against clinical Staphylococcus aureus isolates. In this study, we further ...

    Authors: Zhanwen Wang, Zhiwei Lin, Bing Bai, Guangjian Xu, Peiyu Li, Zhijian Yu, Qiwen Deng, Yongpeng Shang and Jinxin Zheng

    Citation: BMC Microbiology 2020 20:189

    Content type: Research article

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  31. Ceftazidime-avibactam was approved in China in 2019 for treating complicated intra-abdominal infections, hospital-acquired pneumonia, ventilator-associated pneumonia, and infections caused by Enterobacterales and...

    Authors: Qi Wang, Feifei Zhang, Zhanwei Wang, Hongbin Chen, Xiaojuan Wang, Yawei Zhang, Shuguang Li and Hui Wang

    Citation: BMC Microbiology 2020 20:187

    Content type: Research article

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  32. Tigecycline is a last-resort antibiotic used to treat severe infections caused by extensively drug-resistant bacteria. Recently, novel tigecycline resistance genes tet(X3) and tet(X4) have been reported, which po...

    Authors: Yiming Li, Zhangqi Shen, Shuangyang Ding and Shaolin Wang

    Citation: BMC Microbiology 2020 20:174

    Content type: Methodology article

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  33. Streptococcus pneumoniae causes serious infections worldwide. The aim of this study was to determine the molecular characteristic, antibiotic resistance pattern and capsular types of invasive S. pneumoniae in Teh...

    Authors: Maryam Beheshti, Fereshteh Jabalameli, Mohammad Mehdi Feizabadi, Farhad Bonakdar Hahsemi, Reza Beigverdi and Mohammad Emaneini

    Citation: BMC Microbiology 2020 20:167

    Content type: Research article

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  34. Health-care professionals need to collect wound samples to identify potential pathogens that contribute to wound infection. Obtaining appropriate samples from diabetic foot ulcers (DFUs) where there is a suspi...

    Authors: J. Travis, M. Malone, H. Hu, A. Baten, K. Johani, F. Huygens, K. Vickery and K. Benkendorff

    Citation: BMC Microbiology 2020 20:163

    Content type: Research article

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  35. To investigate the species distribution of non-tuberculous mycobacteria (NTM) among tuberculosis (TB) specimens collected from January 2013 to December 2018 at Peking Union Medical Hospital (Beijing), China. N...

    Authors: Jing-jing Huang, Ying-xing Li, Ying Zhao, Wen-hang Yang, Meng Xiao, Timothy Kudinha and Ying-chun Xu

    Citation: BMC Microbiology 2020 20:158

    Content type: Research article

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  36. Enterobacterial common antigen (ECA) is a family-specific surface antigen shared by all members of the Enterobacteriaceae family. Previous studies showed that the loss of ECA results in Salmonella attenuation, in...

    Authors: Qing Liu, Xuegang Shen, Xiaoping Bian and Qingke Kong

    Citation: BMC Microbiology 2020 20:150

    Content type: Research article

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  37. Bacterial meningitis is a serious inflammation of the meninges. Antimicrobial therapy on early cerebrospinal fluid (CSF) examination has an important role in diagnosis. The disease is still challenging in deve...

    Authors: Demissie Assegu Fenta, Kinfe Lemma, Henok Tadele, Birkneh Tilahun Tadesse and Birrie Derese

    Citation: BMC Microbiology 2020 20:125

    Content type: Research article

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    The Correction to this article has been published in BMC Microbiology 2020 20:153

  38. The antibiotics generally used in farm animals are rapidly losing their effectiveness all over the world as bacteria develop antibiotic resistance. Like some other pathogenic bacteria multidrug-resistant strai...

    Authors: Md. Akil Hossain, Hae-Chul Park, Kwang-Jick Lee, Sung-Won Park, Seung-Chun Park and JeongWoo Kang

    Citation: BMC Microbiology 2020 20:118

    Content type: Research article

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  39. Xanthomonas oryzae pv. oryzae (Xoo) can cause destructive bacterial blight in rice. As an antibacterial, resveratrol may inhibit Xoo growth. This study focused on the potential structural-activity relationship of...

    Authors: Huai-Zhi Luo, Ying Guan, Rui Yang, Guo-Liang Qian, Xian-Hui Yang, Jun-Song Wang and Ai-Qun Jia

    Citation: BMC Microbiology 2020 20:117

    Content type: Research article

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  40. Concern about Haemophilus influenzae infection has been increasing over recent decades. Given the emergence of H. influenzae with severe drug resistance, we assessed the prevalence of as well as risk factors and ...

    Authors: Pei-Yi Su, Ay-Huey Huang, Chung-Hsu Lai, Hsiu-Fang Lin, Tsun-Mei Lin and Cheng-Hsun Ho

    Citation: BMC Microbiology 2020 20:102

    Content type: Research article

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  41. Multi-drug resistant (MDR) Acinetobacter baumannii is one of the most important causes of nosocomial infections. The purpose of this study was to identify antibiotic resistance patterns, biofilm formation and the...

    Authors: Ali Mohammadi Bardbari, Parviz Mohajeri, Mohammad Reza Arabestani, Manoochehr Karami, Fariba Keramat, Saba Asadollahi, Amir Khodavirdipour and Mohammad Yousef Alikhani

    Citation: BMC Microbiology 2020 20:101

    Content type: Research article

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  42. Visceral leishmaniasis in Ethiopia is a re-emerging threat to public health, with increased geographical distribution and number of cases. It is a fatal disease without early diagnosis and treatment; thus, the...

    Authors: Birhanu Ayelign, Mohammedamin Jemal, Markos Negash, Meaza Genetu, Tadelo Wondmagegn, Ayalew Jejaw Zeleke, Ligabaw Worku, Abebe Genetu Bayih, Girma Shumie, Sinknesh Wolde Behaksra, Tiruwork Fenta, Demekech Damte, Arega Yeshanew and Endalamaw Gadisa

    Citation: BMC Microbiology 2020 20:90

    Content type: Research article

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  43. The aim was to evaluate the changes of 16S rDNA sequencing and LC-MS metabolomics in breast cancer and explore the growth inhibition of breast cancer cells by Faecalibacterium prausnitzii.

    Authors: Ji Ma, Lingqi Sun, Ying Liu, Hui Ren, Yali Shen, Feng Bi, Tao Zhang and Xin Wang

    Citation: BMC Microbiology 2020 20:82

    Content type: Research article

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  44. Despite vaccination programs, Streptococcus pneumoniae remains among the main microorganisms involved in bacterial pneumonia, notably in terms of severity. The prognosis of pneumococcal infections is conditioned ...

    Authors: Cyrille H. Haddar, Johan Joly, Anne Carricajo, Paul O. Verhoeven, Florence Grattard, Olivier Mory, Evelyne Begaud, Yves Germani, Aymeric Cantais and Bruno Pozzetto

    Citation: BMC Microbiology 2020 20:79

    Content type: Research article

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  45. Different diagnostic methods have been used for the laboratory confirmation of leptospirosis. Molecular diagnostic techniques are not only faster and more sensitive than culture analysis, but can also detect a Le...

    Authors: Daša Podgoršek, Eva Ružić-Sabljić, Mateja Logar, Andrea Pavlović, Tatjana Remec, Zvonko Baklan, Emil Pal and Tjaša Cerar

    Citation: BMC Microbiology 2020 20:59

    Content type: Research article

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  46. The treatment of Enterobacteriaceae family including diarrheagenic E. coli (DEC) has been increasingly complicated due to the emergence of resistant strains. Here we report on the phenotypic resistance profiles a...

    Authors: Nahla O. Eltai, Asmaa A. Al Thani, Sara H. Al Hadidi, Khalid Al Ansari and Hadi M. Yassine

    Citation: BMC Microbiology 2020 20:54

    Content type: Research article

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  47. The dogma that urine is sterile in healthy individuals has been overturned by recent studies applying molecular-based methods. Mounting evidences indicate that dysbiosis of the urinary microbiota is associated...

    Authors: Jing Xie, Jian-sheng Huang, Xiang-jiang Huang, Jun-ming Peng, Zhou Yu, Ye-qing Yuan, Ke-feng Xiao and Ji-nan Guo

    Citation: BMC Microbiology 2020 20:41

    Content type: Research article

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  48. Klebsiella pneumoniae is considered the most clinically relevant species of Enterobacteriaceae, known to cause severe infections including liver abscesses. To the best of our knowledge, a large proportion of iron...

    Authors: Tao Chen, Guofeng Dong, Siqin Zhang, Xiucai Zhang, Yajie Zhao, Jianming Cao, Tieli Zhou and Qing Wu

    Citation: BMC Microbiology 2020 20:36

    Content type: Research article

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